A 3D TSE simulation tool designed as both an educational tool as well as a guide for optimizing protocols is described. The pulse sequence protocol user interface triggers integrated Bloch simulations for a user-defined set of tissues based on current protocol settings including the variable flip angle scheme and reordering mode. The tool models tissue T1 & T2 as well as flow effects. We demonstrate applicability to the issue of flow-induced signal loss in CSF and compare simulations to in vivo measurements. The effects of parameter changes that would otherwise require lengthy in vivo comparisons can now be easily explored.